Good Microbes in Medicine, Food Production, Biotechnology, Bioremediation, and Agriculture Discover the positive and helpful contributions made by microorganisms to various areas of human health, food preservation and production, biotechnology, industry, environmental clean-up and sustainable agriculture. In Good Microbes in Medicine, Food Production, Biotechnology, Bioremediation, and Agriculture, a team of distinguished researchers delivers a comprehensive and eye-opening look at the positive side of bacteria and other microbes. The book explores the important and positive roles played by microorganisms. Divided into five sections, Good Microbes examines the use of microorganisms and the microbiome in human health, food production, industrial use, bioremediation, and sustainable agriculture. Coverage spans from food allergies, skin disorders, microbial food preservation and fermentation of various beverages and food products, and from an ethical point of view to the beneficial use of microbes in biotechnology, industry, bioeconomy, environmental remediation such as resource recovery, microbial-based environmental clean-up, plant-microbe interactions in biorestauration, biological control of plant diseases, and biological nitrogen fixation. Provides basic knowledge on bacterial biology, biochemistry, genetics, and genomics of beneficial microbes Includes practical discussions of microbial biotechnology, including the contribution of microbial biotechnology to sustainable development goals Features a comprehensive introduction and extensive index to facilitate the search for key terms. Perfect for scientists, researchers and anyone with an interest in beneficial microbes, Good Microbes in Medicine, Food Production, Biotechnology, Bioremediation, and Agriculture is also an indispensable resource for microbiology graduate students, applied microbiologists and policy makers.

Bacteria in various habitats are subject to continuously changing environmental conditions, such as nutrient deprivation, heat and cold stress, UV radiation, oxidative stress, dessication, acid stress, nitrosative stress, cell envelope stress, heavy metal exposure, osmotic stress, and others. In order to survive, they have to respond to these conditions by adapting their physiology through sometimes drastic changes in gene expression. In addition they may adapt by changing their morphology, forming biofilms, fruiting bodies or spores, filaments, Viable But Not Culturable (VBNC) cells or moving away from stress compounds via chemotaxis. Changes in gene expression constitute the main component of the bacterial response to stress and environmental changes, and involve a myriad of different mechanisms, including (alternative) sigma factors, bi- or tri-component regulatory systems, small non-coding RNA s, chaperones, CHRIS-Cas systems, DNA repair, toxin-antitoxin systems, the stringent response, efflux pumps, alarmones, and modulation of the cell envelope or membranes, to name a few. Many regulatory elements are conserved in different bacteria; however there are endless variations on the theme and novel elements of gene regulation in bacteria inhabiting particular environments are constantly being discovered. Especially in (pathogenic) bacteria colonizing the human body a plethora of bacterial responses to innate stresses such as pH, reactive nitrogen and oxygen species and antibiotic stress are being described. An attempt is made to not only cover model systems but give a broad overview of the stress-responsive regulatory systems in a variety of bacteria, including medically important bacteria, where elucidation of certain aspects of these systems could lead to treatment strategies of the pathogens. Many of the regulatory systems being uncovered are specific, but there is also considerable cross-talk between different circuits. Stress and Environmental Regulation of Gene Expression and Adaptation in Bacteria is a comprehensive two-volume work bringing together both review and original research articles on key topics in stress and environmental control of gene expression in bacteria. Volume One contains key overview chapters, as well as content on one/two/three component regulatory systems and stress responses, sigma factors and stress responses, small non-coding RNAs and stress responses, toxin-antitoxin systems and stress responses, stringent response to stress, responses to UV irradiation, SOS and double stranded systems repair systems and stress, adaptation to both oxidative and osmotic stress, and desiccation tolerance and drought stress. Volume Two covers heat shock responses, chaperonins and stress, cold shock responses, adaptation to acid stress, nitrosative stress, and envelope stress, as well as iron homeostasis, metal resistance, quorum sensing, chemotaxis and biofilm formation, and viable but not culturable (VBNC) cells. Covering the full breadth of current stress and environmental control of gene expression studies and expanding it towards future advances in the field, these two volumes are a one-stop reference for (non) medical molecular geneticists interested in gene regulation under stress.

Fully covers the biology, biochemistry, genetics, and genomics of Medicago truncatula Model plant species are valuable not only because they lead to discoveries in basic biology, but also because they provide resources that facilitate translational biology to improve crops of economic importance. Plant scientists are drawn to models because of their ease of manipulation, simple genome organization, rapid life cycles, and the availability of multiple genetic and genomic tools. This reference provides comprehensive coverage of the Model Legume Medicago truncatula. It features review chapters as well as research chapters describing experiments carried out by the authors with clear materials and methods. Most of the chapters utilize advanced molecular techniques and biochemical analyses to approach a variety of aspects of the Model. The Model Legume Medicago truncatula starts with an examination of M. truncatula plant development; biosynthesis of natural products; stress and M. truncatula; and the M. truncatula-Sinorhizobium meliloti symbiosis. Symbiosis of Medicago truncatula with arbuscular mycorrhiza comes next, followed by chapters on the common symbiotic signaling pathway (CSSP or SYM) and infection events in the Rhizobium-legume symbiosis. Other sections look at hormones and the rhizobial and mycorrhizal symbioses; autoregulation of nodule numbers (AON) in M. truncatula; Medicago truncatula databases and computer programs; and more. Contains reviews, original research chapters, and methods Covers most aspects of the M. truncatula Model System, including basic biology, biochemistry, genetics, and genomics of this system Offers molecular techniques and advanced biochemical analyses for approaching a variety of aspects of the Model Legume Medicago truncatula Includes introductions by the editor to each section, presenting the summary of selected chapters in the section Features an extensive index, to facilitate the search for key terms The Model Legume Medicago truncatula is an excellent book for researchers and upper level graduate students in microbial ecology, environmental microbiology, plant genetics and biochemistry. It will also benefit legume biologists, plant molecular biologists, agrobiologists, plant breeders, bioinformaticians, and evolutionary biologists.

A wide range of microbiologists, molecular biologists, and molecular evolutionary biologists will find this new volume of singular interest. It summarizes the present knowledge about the structure and stability of microbial genomes, and reviews the techniques used to analyze and fingerprint them. Maps of approximately thirty important microbes, along with articles on the construction and relevant features of the maps are included. The volume is not intended as a complete compendium of all information on microbial genomes, but rather focuses on approaches, methods and good examples of the analysis of small genomes.

For a long time microbial ecology has been developed as a distinct field with in Ecology. In spite of the important role of microorganisms in the environ ment, this group of 'invisible' organisms remained unaccessable to other ecologists. Detection and identification of microorganisms remain largely dependent on isolation techniques and characterisation of pure cultures. We now realise that only a minor fraction of the microbial community can be cultivated. As a result of the introduction of molecular methods, microbes can now be detected and identified at the DNA/RNA level in their natural environment. This has opened a new field in ecology: Molecular Microbial Ecology. In the present manual we aim to introduce the microbial ecologist to a selected number of current molecular techniques that are relevant in micro bial ecology. The first edition of the manual contains 33 chapters and an equal number of additional chapters will be added this year. Since the field of molecular ecology is in a continuous progress, we aim to update and extend the Manual regularly and will invite anyone to deposit their new protocols in full detail in the next edition of this Manual.

Bacterial Genomes provides an in-depth review of the latest research on the structure and stability of microbial genomes, and the techniques used to analyze and "fingerprint" them. Maps of a variety of microorganisms are featured, along with articles describing their construction and relevant features. Extensive tables summarizing the different types of techniques available to analyze the genomes of these microorganisms are also presented. Among those who will find this text most useful are genome researchers, microbiologists, molecular biologists, bacteriologists, infectious disease researchers, and molecular evolutionary biologists. Researchers and students working in the field of molecular evolution in general will also be interested in this book since microbes are such popular model systems.

New frontiers of science offer exciting opportunities to stretch rice research horizons. Recent advances in understanding symbiotic Rhizobium-legume interactions at the molecular level, the discovery of endophytic interactions of nitrogen-fixing organisms with non-legumes and the ability to introduce new genes into rice through transformation have created an excellent opportunity to investigate the possibilities for incorporating N2 fixation capability in rice. During a think-tank workshop organized by IRRI in 1992, the participants reaffirmed that such opportunities do exist for cereals and recommended that rice be used as a model system. Subsequently, IRRI developed a New Frontier Project to coordinate the worldwide collaborative efforts among research centers committed to reducing dependency of rice on mineral N resources. An international Rice Biological Nitrogen Fixation (BNF) working group was established to review, share research results/materials, and to catalyze research. This volume contains the deliberations made at the second working group meeting, held 13-15 October, 1996 at the National Institute of Biotechnology and Genetic Engineering (NIBGE) in Faisalabad, Pakistan. The papers presented in the meeting deal with the recent findings on different approaches related to the establishment of endophytic association, development of N2-fixing nodules similar to legumes and transfer of nif genes to rice.

The premiere two-volume reference on revelations from studying complex microbial communities in many distinct habitats

Metagenomics is an emerging field that has changed the way microbiologists study microorganisms. It involves the genomic analysis of microorganisms by extraction and cloning of DNA from a group of microorganisms, or the direct use of the purified DNA or RNA for sequencing, which allows scientists to bypass the usual protocol of isolating and culturing individual microbial species. This method is now used in laboratories across the globe to study microorganism diversity and for isolating novel medical and industrial compounds.

"Handbook of Molecular Microbial Ecology" is the first comprehensive two-volume reference to cover unculturable microorganisms in a large variety of habitats, which could not previously have been analyzed without metagenomic methodology. It features review articles as well as a large number of case studies, based largely on original publications and written by international experts. This second volume, Metagenomics in Different Habitats, covers such topics as:

Viral genomes

Metagenomics studies in a variety of habitats, including marine environments and lakes, soil, and human and animal digestive tracts

Other habitats, including those involving microbiome diversity in human saliva and functional intestinal metagenomics; diversity of archaea in terrestrial hot springs; and microbial communities living at the surface of building stones

Biodegradation

Biocatalysts and natural products

A special feature of this book is the highlighting of the databases and computer programs used in each study; they are listed along with their sites in order to facilitate the computer-assisted analysis of the vast amount of data generated by metagenomic studies. Such studies in a variety of habitats are described here, which present a large number of different system-dependent approaches in greatly differing habitats.

"Handbook of Molecular Microbial Ecology II" is an invaluable reference for researchers in metagenomics, microbial ecology, microbiology, and environmental microbiology; those working on the Human Microbiome Project; microbial geneticists; and professionals in molecular microbiology and bioinformatics.

Nitrogen is arguably the most important nutrient required by plants. However, the availability of nitrogen is limited in many soils and although the earth's atmosphere consists of 78.1% nitrogen gas (N2) plants are unable to use this form of nitrogen. To compensate , modern agriculture has been highly reliant on industrial nitrogen fertilizers to achieve maximum crop productivity. However, a great deal of fossil fuel is required for the production and delivery of nitrogen fertilizer. Moreover carbon dioxide (CO2) which is released during fossil fuel combustion contributes to the greenhouse effect and run off of nitrate leads to eutrophication of the waterways. Biological nitrogen fixation is an alternative to nitrogen fertilizer. It is carried out by prokaryotes using an enzyme complex called nitrogenase and results in atmospheric N2 being reduced into a form of nitrogen diazotrophic organisms and plants are able to use (ammonia). It is this process and its major players which will be discussed in this book. Biological Nitrogen Fixation is a comprehensive two volume work bringing together both review and original research articles on key topics in nitrogen fixation. Chapters across both volumes emphasize molecular techniques and advanced biochemical analysis approaches applicable to various aspects of biological nitrogen fixation. Volume 1 explores the chemistry and biochemistry of nitrogenases, nif gene regulation, the taxonomy, evolution, and genomics of nitrogen fixing organisms, as well as their physiology and metabolism. Volume 2 covers the symbiotic interaction of nitrogen fixing organisms with their host plants, including nodulation and symbiotic nitrogen fixation, plant and microbial "omics", cyanobacteria, diazotrophs and non-legumes, field studies and inoculum preparation, as well as nitrogen fixation and cereals. Covering the full breadth of current nitrogen fixation research and expanding it towards future advances in the field, Biological Nitrogen Fixation will be a one-stop reference for microbial ecologists and environmental microbiologists as well as plant and agricultural researchers working on crop sustainability.

Metagenomics has revolutionized microbiology and many associated health and environmental fields. This is the first comprehensive treatise covering the various -omics in a large variety of habitats, which could not previously have been analysed without metagenomic methodology. This is a reference work both for people in the field and those who would like to enter it.

Two volume set covers topics including:

Volume One

Species designations in microbiologyMetagenomicsConsortia and databasesBioinformaticsMicroarraysOther -omics applications

Volume Two

Viral genomesMetagenomics studies in a variety of habitats, including marine, soil, and the digestive tractBiodegradationBiocatalysts and natural products

New frontiers of science offer exciting opportunities to stretch rice research horizons. Recent advances in understanding symbiotic Rhizobium-legume interactions at the molecular level, the discovery of endophytic interactions of nitrogen-fixing organisms with non-legumes and the ability to introduce new genes into rice through transformation have created an excellent opportunity to investigate the possibilities for incorporating N2 fixation capability in rice. During a think-tank workshop organized by IRRI in 1992, the participants reaffirmed that such opportunities do exist for cereals and recommended that rice be used as a model system. Subsequently, IRRI developed a New Frontier Project to coordinate the worldwide collaborative efforts among research centers committed to reducing dependency of rice on mineral N resources. An international Rice Biological Nitrogen Fixation (BNF) working group was established to review, share research results/materials, and to catalyze research. This volume contains the deliberations made at the second working group meeting, held 13-15 October, 1996 at the National Institute of Biotechnology and Genetic Engineering (NIBGE) in Faisalabad, Pakistan. The papers presented in the meeting deal with the recent findings on different approaches related to the establishment of endophytic association, development of N2-fixing nodules similar to legumes and transfer of nif genes to rice.

Microbes are key drivers of the world's ecosystems. The vast majority of the world's diversity and metabolic potential lies within micro-organisms, yet with the advent of molecular-scale observation, we are still barely beginning to understand this microscopic resource. The expanded second edition provides a detailed description of the methods that have made microbial ecology possible.